Special

MmuINT0012631 @ mm9

Intron Retention

Gene
ENSMUSG00000015452 | Ager
Description
advanced glycosylation end product-specific receptor [Source:MGI Symbol;Acc:MGI:893592]
Coordinates
chr17:34736941-34737322:+
Coord C1 exon
chr17:34736941-34737082
Coord A exon
chr17:34737083-34737295
Coord C2 exon
chr17:34737296-34737322
Length
213 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
GACCACTCTTTGTCCTCTAGAAA
3' ss Score
8.23
Exon sequences
Seq C1 exon
GGTGCACCCTTGCCCCTGGCTCCCAGCCCTGTGCTGCTCCTCCCTGAGGTGGGGCACGAGGATGAGGGCACCTATAGCTGCGTGGCCACCCACCCTAGCCACGGACCTCAGGAAAGCCCTCCTGTCAGCATCAGGGTCACAG
Seq A exon
GTAACCCCTCCCCAAATCCCAGGGTCGGGGACGGGGGACTGAGGTGAGGGACACAAGATGCCATCTCCCTACCCCACTCAGACATGAACCCCAGTAGCCACGCCACCCCTTTCTCAGTGCTTCCAAAAGCCCGTCCAGCTTTTCCACTAACTGAGGGGAATTGCCATTGGGCCCGAGCTCAAGTCTTCCCTCTGACCACTCTTTGTCCTCTAG
Seq C2 exon
AAACCGGCGATGAGGGGCCAGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015452-Ager:NM_007425:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.792 A=NA C2=0.815
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF138951=Ig_2=PD(54.2=93.8),PF066977=DUF1191=PU(28.6=66.7),PF0240410=SCF=PU(16.3=31.2)

							
A:
NA

							
C2:
PF066977=DUF1191=FE(8.0=100),PF0240410=SCF=FE(9.8=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000130526





     
                   









    
Main Skipping Isoform:
ENSMUSP00000015596





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000133391
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr6:32181633-32182246 
HsaINT1003177
(AGER)
Human
(hg19)
chr6:32149410-32150023 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:27011037-27011282 
ALTERNATIVE
BtaINT0015708
(AGER)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTGTGCTGCTCCTCCCTGAG

				
R: 
CTTCAGCTGGCCCCTCATC

				
Band lengths: 
141-354

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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